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* sci-biology/ncbi-tools++: add MissingUseDepDefaultAndrew Ammerlaan2021-08-311-1/+1
| | | | | Package-Manager: Portage-3.0.22, Repoman-3.0.3 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
* sci-biology/ncbi-tools++: allow newer versions of sys-libs/dbAndrew Ammerlaan2021-07-031-1/+1
| | | | | Package-Manager: Portage-3.0.20, Repoman-3.0.3 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
* sci-biology/ncbi-tools++: drop python support on 12.0.0Andrew Ammerlaan2021-03-161-8/+4
| | | | | | | is python2 Package-Manager: Portage-3.0.17, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* Revert "sci-biology/ncbi-tools++: drop py2 only version"Andrew Ammerlaan2021-03-161-0/+369
| | | | | | This reverts commit e8d4a8bc048182c0db34a3b995ac6a5c24fcdbb8. Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-biology/ncbi-tools++: drop py2 only versionAndrew Ammerlaan2021-02-011-369/+0
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-biology/ncbi-tools++: update HOMEPAGEAndrew Ammerlaan2021-01-191-1/+1
| | | | | Package-Manager: Portage-3.0.13, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-biology/ncbi-tools++: use https for homepageAndrew Ammerlaan2021-01-131-1/+1
| | | | | Package-Manager: Portage-3.0.13, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-biology/ncbi-tools++: add RESTRICT="!test? ( test )"Andrew Ammerlaan2021-01-101-0/+1
| | | | | Package-Manager: Portage-3.0.12, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-biology/ncbi-tools++: depend on gcc<10, bump py targetsAndrew Ammerlaan2021-01-051-15/+17
| | | | | | Closes: https://github.com/gentoo/sci/pull/1014 Package-Manager: Portage-3.0.12, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-biology/ncbi-tools++: document possible issue with buildsMartin Mokrejs2019-03-301-2/+3
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | I have the following defined due to ncbi-tools++-18.0.0 installed on my system: /usr/lib/gcc/x86_64-pc-linux-gnu/8.3.0/32: /usr/lib/gcc/x86_64-pc-linux-gnu/8.3.0: /usr/lib/gcc/x86_64-pc-linux-gnu/7.3.0/32: /usr/lib/gcc/x86_64-pc-linux-gnu/7.3.0: /usr/lib/llvm/7/lib32: /usr/lib/llvm/7/lib64: /usr/lib64/itcl4.1.1: /usr/lib64/itk4.1.0: /lib64: /usr/lib64: /usr/local/lib64: /lib32: /usr/lib32: /usr/lib64/rust-1.29.2: /usr/lib64/R/lib: /usr/lib64/fltk: /usr/lib64/ncbi-tools++: /usr/lib64/staden: grep: /etc: No such file or directory grep: /etc/env.d: No such file or directory /etc/env.d/99ncbi-tools++:LDPATH=/usr/lib64/ncbi-tools++ ... That in turn makes linker pick "${WORKDIR}"/ncbi_cxx--22_0_0_build/lib/* files but later overrides some of them with /usr/lib64/ncbi-tools++/*, depending on the ordering of -lXXXXXX arguments. Package-Manager: Portage-2.3.62, Repoman-2.3.12 Signed-off-by: Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
* sci-biology/ncbi-tools++-12.0.0: do not force --without-downloaded-vdbMartin Mokrejš2017-03-151-2/+3
| | | | | | This configure flag appeared only in more recent versions. Package-Manager: Portage-2.3.3, Repoman-2.3.1
* sci-biology/gbench and sci-biology/ncbi-tools++: do not download ncbi-vdbMartin Mokrejš2017-02-261-0/+5
| | | | | | Do not download sources from github during configure phase. This disables the feature completely. Somehow it does not find vdb binaries provided by our sci-biology/ncbi-tools++ package?
* Drop leftover from CVS in HEADERJustin Lecher2017-02-251-1/+0
| | | | Signed-off-by: Justin Lecher <jlec@gentoo.org>
* Drop all trailing whitespacesJustin Lecher2017-02-051-6/+6
| | | | Signed-off-by: Justin Lecher <jlec@gentoo.org>
* sci-biology/ncbi-tools++: add a comment about >=gcc-5.3.0 incompatibilityMartin Mokrejš2016-12-031-0/+3
| | | | Package-Manager: portage-2.3.2
* sci-biology/ncbi-tools++: fix bug #579248#c by disabling more testsMartin Mokrejš2016-12-031-0/+1
| | | | | | | | | | | | | | | | | | | | | | | | This will likely also fix the #579248 bug in rmblast (untested). Our $FILESDIR/disable-testsuite-compilation.txt only excludes test applications from usingboost, not the support library. Hence the above bug. We could either add --without-boost to the configuration command line to disable the bosost-related code in support library or, which is the path we take in this commit, we disable building of the yet escaping unit_tests which needed boost. Upstream further said: The C++ Toolkit makes very little use of Boost outside of unit tests, but that's a fair question. The simplest fix preserving other uses of Boost would be to edit .../src/corelib/Makefile.in and remove test_boost from LIB_PROJ. (You'll still also need to exclude building the tests by adding '-.*/unit_tests' to the $FILESDIR/disable-testsuite-compilation.txt file.) Package-Manager: portage-2.3.2
* sci-biology/ncbi-tools++: Fix SLOT operatorsJustin Lecher2016-08-231-1/+1
| | | | | Package-Manager: portage-2.3.0 Signed-off-by: Justin Lecher <jlec@gentoo.org>
* sci-biology/ncbi-tools++: Drop obsolete depJustin Lecher2016-08-231-1/+0
| | | | | Package-Manager: portage-2.3.0 Signed-off-by: Justin Lecher <jlec@gentoo.org>
* sci-biology/ncbi-tools++: Drop sqlite-2 supportJustin Lecher2016-01-061-4/+3
| | | | | Package-Manager: portage-2.2.26 Signed-off-by: Justin Lecher <jlec@gentoo.org>
* Convert all $Header$ to $Id$ tags as it has be done in gentoo.gitJustin Lecher2015-08-171-1/+1
| | | | Signed-off-by: Justin Lecher <jlec@gentoo.org>
* added dep needed at build-timeHorea Christian2015-06-231-0/+1
| | | | Package-Manager: portage-2.2.20
* sci-biology/ncbi-tools++: added upstream patch to compile against ↵Martin Mokrejš2015-06-111-0/+1
| | | | | | sys-libs/db-6.0.30 Package-Manager: portage-2.2.18
* sci-biology/ncbi-tools++: re-added KEYWORDSMartin Mokrejš2015-04-171-1/+2
| | | | Package-Manager: portage-2.2.18
* sci-biology/ncbi-tools++: fix SLOT operators; correct python depsJustin Lecher2015-02-181-7/+11
| | | | Package-Manager: portage-2.2.17
* ncbi-tools++: fix prefix libdir, muparser/hdf5 use flagsmschubert2014-10-091-3/+3
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* major clean, drop old version and unused patchesChristoph Junghans2014-09-151-2/+1
| | | | Package-Manager: portage-2.2.8-r1
* sci-biology/ncbi-tools++-12.0.0: improved comment textMartin Mokrejš2014-06-261-1/+4
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* sci-biology/ncbi-tools++: so require media-libs/mesa[osmesa] for USE=mesaMartin Mokrejš2014-06-261-1/+1
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* sci-biology/ncbi-tools++: bring back USE=mesa although it is about OSMesaMartin Mokrejš2014-06-261-5/+3
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* sci-biology/ncbi-tools++: fix 'make install if USE=pchMartin Mokrejš2014-06-261-0/+1
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* sci-biology/ncbi-tools++: dropped USE=ftds as it is useless and recommended ↵Martin Mokrejš2014-06-261-8/+6
| | | | by upstream to be disabled altogether
* sci-biology/ncbi-tools++-12.0.0: drop forgotten IUSE=sslMartin Mokrejš2014-06-261-1/+1
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* sci-biology/ncbi-tools++-12.0.0: added a blocker with sci-biology/sra_sdkMartin Mokrejš2014-06-261-0/+1
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* sci-biology/ncbi-tools++-12.0.0: dropping :%=% from LIB settingsMartin Mokrejš2014-06-261-0/+1
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* sci-biology/ncbi-tools++-12.0.0: dropped altogether openssl-related USE ↵Martin Mokrejš2014-06-261-3/+1
| | | | flags and configure arguments (per upstream info nothing in the public code uses openssl and the configure test is there for their internal reasonings); dropped gnutls[lzo] requirement which was only need for unpatched 9.0.0 version; however, --with-lzo is still advantageous for http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/group__Compression.htmlhttp://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/group__CompressionStreams.html
* sci-biology/ncbi-tools++-12.0.0: cleanup comments and shutdown a false alarm ↵Martin Mokrejš2014-06-261-2/+1
| | | | message from mv
* sci-biology/ncbi-tools++-12.0.0: dropped unneeded patches, added direct ↵Martin Mokrejš2014-06-261-5/+2
| | | | dependency on glew because the dependency on virtual/opengl does not work
* sci-biology/ncbi-tools++-12.0.0: re-added update patch to configure so that ↵Martin Mokrejš2014-06-251-2/+2
| | | | we can avoid eautoconf until there is autoconf-2.59 system-wide
* sci-biology/ncbi-tools++-12.0.0: install colliding files under a name ↵Martin Mokrejš2014-06-251-2/+6
| | | | suffixed by a plus sign
* sci-biology/ncbi-tools++-12.0.0: first compile-able ebuild, wow, huge thanks ↵Martin Mokrejš2014-06-251-5/+9
| | | | to Aaron Ucko from NCBI developers on the cpp@ mailing list
* more changes to get ncbi-tools++-12.0.0 compiledMartin Mokrejš2014-06-251-10/+36
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* add an extra patch for configure until we find a way to ensure user has ↵Martin Mokrejš2014-06-231-6/+10
| | | | autoconf-2.59 or for ncbi-tools++-12.0.0 may have autoconf-2.60
* add patches for 12.0.0 to support autoconf-2.60 (so far 2.59 was needed)Martin Mokrejš2014-06-231-3/+7
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* sci-biology/ncbi-tools++: added a note about a taxonomy database add-on not ↵Martin Mokrejš2014-06-021-0/+3
| | | | yet installed by Gentoo
* Configure worksJustin Lecher2014-05-061-8/+8
| | | | Signed-off-by: Justin Lecher <jlec@gentoo.org>
* sci-biology/ncbi-tools++: add deps on jpeg-turboMartin Mokrejš2014-03-251-1/+1
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* Sanitize ebuild headerJustin Lecher2014-01-301-2/+2
| | | | Signed-off-by: Justin Lecher <jlec@gentoo.org>
* Start to work on it againJustin Lecher2014-01-251-7/+7
| | | | Signed-off-by: Justin Lecher <jlec@gentoo.org>
* Fix URL to point to a public SVN repositoryMartin Mokrejš2013-09-141-2/+3
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* more 12.0.0 cleanup, still not workingMartin Mokrejš2013-09-141-0/+3
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